neherlab pan-genome-analysis issues

neherlab / pan-genome-analysis

Processing pipeline for pan-genome visulization and exploration

http://pangenome.de

GNU General Public License v3.0

132 stars 37 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

SF12_create_panGenome import ete_tree_split

#62 delavegapab opened 6 months ago
0
extract collection date without time

#61 Ha-nn-ah opened 11 months ago
1
Bump scipy from 0.16.1 to 1.10.0

#60 dependabot[bot] opened 1 year ago
0
IOError: [Errno 2] No such file or directory: '/home/a/Desktop/pan-genome-analysis/data/geneCluster/old_clusters_longSplit.txt'

#59 faraziAnindo opened 1 year ago
1
[Errno 2] No such file or directory: -> tmp_core_diversity.txt

#58 Calvin2077 opened 1 year ago
2
panX output file created but it empty?

#57 neelam19051 opened 1 year ago
0
run-TestSet.sh: 25: ./panX.py: Permission denied

#56 Dimpledavray287 opened 2 years ago
1
error running the test set in the py3 branch

#55 themudo opened 2 years ago
0
Bump numpy from 1.10.4 to 1.22.0

#54 dependabot[bot] opened 2 years ago
0
Bump numpy from 1.10.4 to 1.21.0

#53 dependabot[bot] closed 2 years ago
1
Step for generation of archive all_protein_seq.cpk

#52 GitHublilo opened 2 years ago
0
Failed to export myPangenome's geneCluster.json (step 10)

#51 jhcuarta opened 2 years ago
0
Roary output visualization using panX

#50 leabact opened 2 years ago
0
ValueError

#49 byeollee opened 2 years ago
0
Could this software uesd in animal?

#48 ld9866 opened 2 years ago
2
PanX visualization: No gene tree

#47 MarietteEK opened 3 years ago
1
Issue with Step-09

#46 raavan-deka opened 3 years ago
0
geneCluster & core_geeList.txt output files

#45 MarietteEK closed 3 years ago
0
step 11: ValueError: need more than 1 value to unpack

#44 NA1919 opened 3 years ago
0
step 11 with metadata: IndexError: list index out of range

#43 NA1919 closed 3 years ago
0
Core genome not found even with low soft core parameter in similar genera. Error in step06 & step08

#42 ashapter closed 3 years ago
1
docs still state to install miniconda2

#41 nick-youngblut opened 3 years ago
2
Running workflow for new data

#40 smb20200615 opened 3 years ago
0
Failed to read gbff files

#39 oeco28 opened 4 years ago
0
DIAMOND fails to produce pairwise alignments in Step 5

#38 awalling opened 4 years ago
0
Biopython Parser Warning

#37 kbojanic opened 4 years ago
0
xb_xref err

#36 Bruce-BC opened 4 years ago
0
Long running time or bug?

#35 Zick007 opened 4 years ago
2
Failed to run Test

#34 stheil15 opened 4 years ago
3
No module Numpy

#33 pavlohrab closed 4 years ago
0
How to prepare file "stran_list"(step 01) ?

#32 fengshuo112 opened 4 years ago
0
Running sh run-TestSet.sh cause error

#31 OlegKotcar opened 4 years ago
3
Very diverse pangenome?

#30 apredeus opened 5 years ago
1
How strain file should be formatted?

#29 FilipeMatteoli closed 5 years ago
2
Extracting data for individual genomes

#28 mdieser opened 5 years ago
2
python3

#27 JFsanchezherrero opened 5 years ago
4
Update panX-environment.yml

#26 greenkidneybean closed 5 years ago
1
fix treetime import

#25 fbaumdicker closed 5 years ago
3
Issue with step 8

#24 jpaganini opened 5 years ago
4
Fail to run TestSet using panX

#23 limin321 opened 5 years ago
11
pan genome visualization component "Sequence Alignment" not working

#22 wshropshire closed 5 years ago
2
long_split issue

#21 jpaganini closed 5 years ago
5
Gene gain/loss, duplication

#20 mdieser opened 5 years ago
1
Error step 10

#19 mdieser closed 5 years ago
2
Newick

#18 mdieser closed 5 years ago
7
Segmentation fault

#17 pneumowidow closed 5 years ago
5
File input

#16 mdieser closed 5 years ago
6
single copy core genes

#15 alantsangmb closed 5 years ago
4
Shutil to move files

#14 rneher closed 5 years ago
0
ete2 missing?

#13 shlomobl opened 5 years ago
4